keyword
MENU ▼
Read by QxMD icon Read
search

haplotype analysis

keyword
https://www.readbyqxmd.com/read/28732438/investigation-of-killer-immunoglobulin-like-receptor-kir-and-hla-genotypes-to-predict-the-occurrence-of-acute-allograft-rejection-after-kidney-transplantation
#1
Davood Jafari, Mohsen Nafar, Mir Saeed Yekaninejad, Razieh Abdolvahabi, Mahboob Lesan Pezeshki, Efat Razaghi, Ali Akbar Amirzargar
After kidney transplantation, natural killer (NK) cells play a pivotal role in triggering the immune response to the allogeneic grafts primarily by their killer-cell immunoglobulin-like receptors (KIR). This process may be one mechanism that contributes to graft rejection. In this study, we have evaluated whether acute rejection after kidney transplantation was associated with predicted NK cell alloreactivity based on KIR gene and ligand along with KIR/HLA compound genotype analysis. After kidney transplantation, natural killer (NK) cells play a pivotal role in triggering the immune response to the allogeneic grafts primarily by their killer-cell immunoglobulin-like receptors (KIR)...
June 2017: Iranian Journal of Allergy, Asthma, and Immunology
https://www.readbyqxmd.com/read/28729957/decline-of-heterozygosity-in-a-large-but-isolated-population-a-45-year-examination-of-moose-genetic-diversity-on-isle-royale
#2
Renae L Sattler, Janna R Willoughby, Bradley J Swanson
Wildlife conservation and management approaches typically focus on demographic measurements to assess population viability over both short and long periods. However, genetic diversity is an important predictor of long term population vitality. We investigated the pattern of change in genetic diversity in a large and likely isolated moose (Alces alces) population on Isle Royale (Lake Superior) from 1960-2005. We characterized samples, partitioned into five different 5-year periods, using nine microsatellite loci and a portion of the mtDNA control region...
2017: PeerJ
https://www.readbyqxmd.com/read/28729648/a-haplotype-in-cfh-family-genes-confers-high-risk-of-rare-glomerular-nephropathies
#3
Yin Ding, Weiwei Zhao, Tao Zhang, Hao Qiang, Jianping Lu, Xin Su, Shuzhen Wen, Feng Xu, Mingchao Zhang, Haitao Zhang, Caihong Zeng, Zhihong Liu, Huimei Chen
Despite distinct renal lesions, a series of rare glomerular nephropathies are reportedly mediated by complement overactivation. Genetic variations in complement genes contribute to disease risk, but the relationship of genotype to phenotype has not been straightforward. Here, we screened 11 complement genes from 91 patients with atypical hemolytic uremic syndrome (aHUS), C3 glomerulopathy (C3G) and membranoproliferative glomerulonephritis type I (MPGN I), and identified the concomitant presence of three missense variations located within the human complement Factor H (CFH) gene cluster...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28727023/rapid-communication-high-resolution-quantitative-trait-loci-analysis-identifies-ltbp2-encoding-latent-transforming-growth-factor-beta-binding-protein-2-associated-with-thoracic-vertebrae-number-in-a-large-f2-intercross-between-landrace-and-korean-native-pigs
#4
H-B Park, S-H Han, J-B Lee, I-C Cho
Number of vertebrae is associated with body size and meat productivity in pigs. The aim of this study was to identify QTL and associated positional candidate genes affecting the number of thoracic vertebrae (THO). A genomewide association study was conducted in a large resource population derived from an F intercross between Landrace and Korean native pigs using the Porcine SNP 60K BeadChip and the genomewide complex trait analysis (GCTA) program based on a linear mixed-effects model. A total of 38,385 SNP markers from 1,105 F progeny were analyzed for the THO trait after filtering for quality control...
May 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28726618/global-spread-of-norovirus-gii-17-kawasaki-308-2014-2016
#5
Martin C W Chan, Yunwen Hu, Haili Chen, Alexander T Podkolzin, Ekaterina V Zaytseva, Jun Komano, Naomi Sakon, Yong Poovorawan, Sompong Vongpunsawad, Thanundorn Thanusuwannasak, Joanne Hewitt, Dawn Croucher, Nikail Collins, Jan Vinjé, Xiaoli L Pang, Bonita E Lee, Miranda de Graaf, Janko van Beek, Harry Vennema, Marion P G Koopmans, Sandra Niendorf, Mateja Poljsak-Prijatelj, Andrej Steyer, Peter A White, Jennifer H Lun, Janet Mans, Tin-Nok Hung, Kirsty Kwok, Kelton Cheung, Nelson Lee, Paul K S Chan
Analysis of complete capsid sequences of the emerging norovirus GII.17 Kawasaki 308 from 13 countries demonstrated that they originated from a single haplotype since the initial emergence in China in late 2014. Global spread of a sublineage SL2 was identified. A new sublineage SL3 emerged in China in 2016.
August 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28725665/data-on-haplotype-supported-immunoglobulin-germline-gene-inference
#6
Ufuk Kirik, Lennart Greiff, Fredrik Levander, Mats Ohlin
Data that defines IGHV (immunoglobulin heavy chain variable) germline gene inference using sequences of IgM-encoding transcriptomes obtained by Illumina MiSeq sequencing technology are described. Such inference is used to establish personalized germline gene sets for in-depth antibody repertoire studies and to detect new antibody germline genes from widely available immunoglobulin-encoding transcriptome data sets. Specifically, the data has been used to validate (Parallel antibody germline gene and haplotype analyses support the validity of immunoglobulin germline gene inference and discovery (DOI: 10...
August 2017: Data in Brief
https://www.readbyqxmd.com/read/28725387/origins-of-two-hemiclonal-hybrids-among-three-hexagrammos-species-teleostei-hexagrammidae-genetic-diversification-through-host-switching
#7
Hiroyuki Munehara, Miho Horita, Motoko R Kimura-Kawaguchi, Aya Yamazaki
Two natural, hemiclonal hybrid strains were discovered in three Hexagrammos species. The natural hybrids, all of which were females that produced haploid eggs containing only the Hexagrammos octogrammus genome (maternal ancestor; hereafter Hoc), generated F1 hybrid-type offspring by fertilization with haploid sperm of Hexagrammos agrammus or Hexagrammos otakii (paternal species; Hag and Hot, respectively). This study was performed to clarify the extent of diversification between the two hybrids and the maternal ancestor...
October 2016: Ecology and Evolution
https://www.readbyqxmd.com/read/28723952/evidence-for-prehistoric-origins-of-the-g2019s-mutation-in-the-north-african-berber-population
#8
Rafiqua Ben El Haj, Ayyoub Salmi, Wafa Regragui, Ahmed Moussa, Naima Bouslam, Houyam Tibar, Ali Benomar, Mohamed Yahyaoui, Ahmed Bouhouche
The most common cause of the monogenic form of Parkinson's disease known so far is the G2019S mutation of the leucine-rich repeat kinase 2 (LRRK2) gene. Its frequency varies greatly among ethnic groups and geographic regions ranging from less than 0.1% in Asia to 40% in North Africa. This mutation has three distinct haplotypes; haplotype 1 being the oldest and most common. Recent studies have dated haplotype 1 of the G2019S mutation to about 4000 years ago, but it remains controversial whether the mutation has a Near-Eastern or Moroccan-Berber ancestral origin...
2017: PloS One
https://www.readbyqxmd.com/read/28723613/mixture-model-based-association-analysis-with-case-control-data-in-genome-wide-association-studies
#9
Fadhaa Ali, Jian Zhang
Multilocus haplotype analysis of candidate variants with genome wide association studies (GWAS) data may provide evidence of association with disease, even when the individual loci themselves do not. Unfortunately, when a large number of candidate variants are investigated, identifying risk haplotypes can be very difficult. To meet the challenge, a number of approaches have been put forward in recent years. However, most of them are not directly linked to the disease-penetrances of haplotypes and thus may not be efficient...
July 19, 2017: Statistical Applications in Genetics and Molecular Biology
https://www.readbyqxmd.com/read/28722587/lack-of-geospatial-population-structure-yet-significant-linkage-disequilibrium-in-the-reservoir-of-plasmodium-falciparum-in-bongo-district-ghana
#10
Shazia Ruybal-Pesántez, Kathryn E Tiedje, Mary M Rorick, Lucas Amenga-Etego, Anita Ghansah, Abraham Oduro, Kwadwo A Koram, Karen P Day
Malaria control in West Africa is impeded by the large reservoir of chronic asymptomatic Plasmodium falciparum infections in the human population. This study aimed to assess the extent of diversity in the P. falciparum reservoir in Bongo District (BD), Ghana, at the end of the dry season, the lowest point in malaria transmission over the course of the year. Analysis of the variation in 12 microsatellite loci was completed for 200 P. falciparum isolates collected from a cross-sectional survey of residents of all ages from two catchment areas in BD...
July 3, 2017: American Journal of Tropical Medicine and Hygiene
https://www.readbyqxmd.com/read/28721851/development-and-evaluation-of-a-multiple-locus-variable-number-tandem-repeats-analysis-assay-for-subtyping-salmonella-typhi-strains-from-sub-saharan-africa
#11
Nomsa P Tau, Anthony M Smith, John R Wain, Andrew Tarupiwa, Kalpy J Coulibaly, Karen H Keddy, Germs-Sa
PURPOSE: Molecular epidemiological investigations of the highly clonal Salmonella enterica subspecies enterica serovar Typhi (S. Typhi) are important in outbreak detection and in tracking disease transmission. In this study, we developed and evaluated a multiple-locus variable-number tandem-repeats (VNTR) analysis (MLVA) assay for characterization of S. Typhi isolates from sub-Saharan Africa. METHODOLOGY: Twelve previously reported VNTR loci were evaluated and an MLVA assay consisting of five polymorphic loci was adopted...
July 18, 2017: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/28721485/non-additive-and-epistatic-effects-of-hla-polymorphisms-contributing-to-risk-of-adult-glioma
#12
Chenan Zhang, Adam J de Smith, Ivan V Smirnov, John K Wiencke, Joseph L Wiemels, John S Witte, Kyle M Walsh
Although genome-wide association studies have identified several susceptibility loci for adult glioma, little is known regarding the potential contribution of genetic variation in the human leukocyte antigen (HLA) region to glioma risk. HLA associations have been reported for various malignancies, with many studies investigating selected candidate HLA polymorphisms. However, no systematic analysis has been conducted in glioma patients, and no investigation into potential non-additive effects has been described...
July 18, 2017: Journal of Neuro-oncology
https://www.readbyqxmd.com/read/28720156/fmr1-cgg-repeat-expansion-mutation-detection-and-linked-haplotype-analysis-for-reliable-and-accurate-preimplantation-genetic-diagnosis-of-fragile-x-syndrome
#13
Indhu-Shree Rajan-Babu, Mulias Lian, Felicia S H Cheah, Min Chen, Arnold S C Tan, Ethiraj B Prasath, Seong Feei Loh, Samuel S Chong
Fragile X mental retardation 1 (FMR1) full-mutation expansion causes fragile X syndrome. Trans-generational fragile X syndrome transmission can be avoided by preimplantation genetic diagnosis (PGD). We describe a robust PGD strategy that can be applied to virtually any couple at risk of transmitting fragile X syndrome. This novel strategy utilises whole-genome amplification, followed by triplet-primed polymerase chain reaction (TP-PCR) for robust detection of expanded FMR1 alleles, in parallel with linked multi-marker haplotype analysis of 13 highly polymorphic microsatellite markers located within 1 Mb of the FMR1 CGG repeat, and the AMELX/Y dimorphism for gender identification...
July 19, 2017: Expert Reviews in Molecular Medicine
https://www.readbyqxmd.com/read/28716280/association-of-polymorphisms-and-reduced-expression-levels-of-the-nr4a2-gene-with-parkinson-s-disease-in-a-mexican-population
#14
Elizabeth Ruiz-Sánchez, Petra Yescas, Mayela Rodríguez-Violante, Nancy Martínez-Rodríguez, Jesica N Díaz-López, Adriana Ochoa, Sergio S Valdes-Rojas, Daniel Magos-Rodríguez, Julio C Rojas-Castañeda, Amin Cervantes-Arriaga, Samuel Canizales-Quinteros, Patricia Rojas
INTRODUCTION: The NR4A2 transcription factor is important in the development, survival and phenotype of dopaminergic neurons and it is postulated as a possible biomarker for Parkinson's disease (PD). Therefore, our aim was to analyze in a sample of a Mexican population with idiopathic PD, mutations (in two hotspot mutation regions) and two polymorphisms (rs34884856 in promotor and rs35479735 intronic regions) of the NR4A2 gene. We also evaluate the levels of NR4A2 gene expression in peripheral blood for a Mexican population, and identify whether they are associated with NR4A2 gene polymorphisms...
August 15, 2017: Journal of the Neurological Sciences
https://www.readbyqxmd.com/read/28715588/caucasian-families-exhibit-significant-linkage-of-myopia-to-chromosome-11p
#15
Anthony M Musolf, Claire L Simpson, Bilal A Moiz, Kyle A Long, Laura Portas, Federico Murgia, Elise B Ciner, Dwight Stambolian, Joan E Bailey-Wilson
Purpose: Myopia is a common visual disorder caused by eye overgrowth, resulting in blurry vision. It affects one in four Americans, and its prevalence is increasing. The genetic mechanisms that underpin myopia are not completely understood. Here, we use genotype data and linkage analyses to identify high-risk genetic loci that are significantly linked to myopia. Methods: Individuals from 56 Caucasian families with a history of myopia were genotyped on an exome-based array, and the single nucleotide polymorphism (SNP) data were merged with microsatellite genotype data...
July 1, 2017: Investigative Ophthalmology & Visual Science
https://www.readbyqxmd.com/read/28715473/population-and-colony-structure-and-morphometrics-in-the-queen-dimorphic-little-black-ant-monomorium-sp-az-02-with-a-review-of-queen-phenotypes-in-the-genus-monomorium
#16
Robert A Johnson, Rick P Overson
The North American little black ant, Monomorium sp. AZ-02 (subfamily Myrmicinae), displays a dimorphism that consists of alate (winged) and ergatoid (wingless) queens. Surveys at our field site in southcentral Arizona, USA, demonstrated that only one queen phenotype (alate or ergatoid) occurred in each colony during the season in which reproductive sexuals were produced. A morphometric analysis demonstrated that ergatoid queens retained all specialized anatomical features of alate queens (except for wings), and that they were significantly smaller and had a lower mass than alate queens...
2017: PloS One
https://www.readbyqxmd.com/read/28713926/association-between-tnfsf4-and-blk-gene-polymorphisms-and-susceptibility-to-allergic-rhinitis
#17
Yang Shen, Yun Liu, Xiao-Qiang Wang, Xia Ke, Hou-Yong Kang, Su-Ling Hong
Allergic rhinitis (AR) is a common inflammatory disease of the upper airway. Recent evidence suggests that gene‑gene interactions between tumor necrosis factor receptor superfamily 4 (TNFSF4) and B cell lymphocyte kinase (BLK) may have a synergistic effect on T and B cells in determining immunologic aberration, via the nuclear factor‑κB pathway. The present study was performed to evaluate the potential association between specific single nucleotide polymorphisms (SNPs) in the TNFSF4 and BKL genes with susceptibility to AR in Chinese subjects...
July 12, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28712774/characterization-of-nphs2-gene-polymorphisms-associated-to-steroid-resistance-nephrotic-syndrome-in-indian-children
#18
Bhoomi B Joshi, Kinnari N Mistry, Sishir Gang, Prakash G Koringa, Chaitanya G Joshi
Nephrotic syndrome (NS) is the common glomerular disease in children. These children are treated with steroids, depending upon their behavior. They are either steroid sensitive (SSNS) or steroid resistant (SRNS). NPHS2 gene mutants are linked to the risk of autosomal recessive SRNS and in some cases to SSNS. The present study has been performed to screen single nucleotide polymorphisms (SNPs) of the NPHS2 gene in a group of 90 Indian children suffering with NS (30 SSNS, 30 SRNS and 30 Controls) by PCR method followed by direct exon sequencing...
July 13, 2017: Gene
https://www.readbyqxmd.com/read/28712341/genetic-analysis-of-bactrocera-zonata-diptera-tephritidae-populations-from-india-based-on-cox1-and-nad1-gene-sequences
#19
Jaipal S Choudhary, Naiyar Naaz, Moanaro Lemtur, Bikash Das, Arun Kumar Singh, Bhagwati P Bhatt, Chandra S Prabhakar
The peach fruit fly, Bactrocera zonata, is among the most serious and polyphagous insect pest of fruit crops in many parts of the world under genus Bactrocera. In the present study, the genetic structure, diversity and demographic history of B. zonata in India were inferred from mitochondrial cytochrome oxidase 1 (cox1) and NADH dehydrogenase 1 (nad1) sequences. The efficiency of DNA barcodes for identification of B. zonata was also tested. Genetic diversity indices [number of haplotypes (H), haplotype diversity (Hd), nucleotide diversity (π) and average number of nucleotide differences (k)] of B...
July 15, 2017: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://www.readbyqxmd.com/read/28712327/genetic-diversity-and-phylogenetic-relationships-of-seven-amorphophallus-species-in-southwestern-china-revealed-by-chloroplast-dna-sequences
#20
Yong Gao, Si Yin, Huixiao Yang, Lifang Wu, Yuehui Yan
Plants species in the genus Amorphophallus are of great economic importance, as they are the only plants known to produce glucomannan. Although southwestern China has been recognized as one of the origin centres of Amorphophallus, only a few studies assessing its genetic diversity have been reported. To aid in the utilization and conservation of Amorphophallus species, we evaluated the genetic diversity and phylogenetic relationships among seven edible Amorphophallus species using three chloroplast DNA regions (rbcL, trnL and trnK-matK)...
July 15, 2017: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
keyword
keyword
32520
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"